Question
I have a scRNA-seq pseudobulk lying around from wheat (sample.swap.rna.q2.tsv.gz). I'm not sure, but I suspect there is a sample swap. Can you check if that is the case? If there isn't, respond "None". Else respond with the names of the two cell types that have been swapped in case-sensitive lexicographic order, e.g. "cortex,endodermis".
- Predicted answer
NoneMost likely answer for this question; not uniquely determined from submitted scores.
- Domain
- Single-cell
- Question style
- Metadata Recovery
An answer can be uniquely inferred for 54 of 100 questions from submitted scores. Green: correct · Red: incorrect. For questions without a uniquely determined answer: Blue: matches prediction · Orange: differs from prediction. These are inferred answer checks, not official per-question grades.
Galaxy
12/12 terminal item results
UDT = user-defined tool: custom code executed by Galaxy. Route badges summarize analysis tools, excluding uploads and automatic conversions. How usage is counted.
Codex GPT-5.5
3 replicates
Codex GPT-5.5
Replicate 1
Matches predictionUDT-only
AnswerNone
WorkflowWheat pseudobulk swap check→Wheat pseudobulk swap acceptance check
Codex GPT-5.5
Replicate 2
Matches predictionUDT-only
AnswerNone
WorkflowWheat pseudobulk swap diagnostics→Inspect wheat root supplement workbook→Inspect wheat root mmc5 xlsx→Wheat marker swap comparison
- Total tokens
- 1.6M
- Output
- 13.7K
Codex GPT-5.5
Replicate 3
Matches predictionUDT + standard tools
AnswerNone
WorkflowWheat swap XLSX diagnostic→UDT mechanical probe→Xlsx2Tsv→UDT mechanical probe 2→UDT mechanical probe 3→3 more tools
- Total tokens
- 4.3M
- Output
- 18.4K
Codex GPT-5.6 Sol
3 replicates
Codex GPT-5.6 Sol
Replicate 1
Matches predictionUDT-only
AnswerNone
WorkflowDiagnostic text UDT→Retrieve wheat atlas repository tree→Retrieve published wheat atlas markers→Retrieve PMC archive manifest→List PMC wheat atlas archive→16 more tools
- Total tokens
- 16.1M
- Output
- 29.9K
Codex GPT-5.6 Sol
Replicate 2
Matches predictionUDT + standard tools
AnswerNone
WorkflowInspect wheat Seurat RDS→Inspect serialized wheat Seurat slots→Inspect wheat Seurat RDS in Seurat 4.3→Export wheat Seurat metadata→Datamash Ops→3 more tools
- Total tokens
- 10.4M
- Output
- 30.4K
Codex GPT-5.6 Sol
Replicate 3
Matches predictionUDT + standard tools
AnswerNone
WorkflowWheat pseudobulk diagnostics→Unzip→Xlsx2Tsv→Inspect wheat reference DEGs→Score wheat reference markers→1 more tools
- Total tokens
- 6.9M
- Output
- 18.6K
Codex + DeepSeek-v4-pro-0813
3 replicates
Codex + DeepSeek-v4-pro-0813
Replicate 1
Matches predictionUDT + standard tools
AnswerNone
WorkflowTp Sort Header Tool→Sample Swap Marker Check
- Total tokens
- 6.1M
- Output
- 38.0K
Codex + DeepSeek-v4-pro-0813
Replicate 2
Matches predictionUDT-only
AnswerNone
WorkflowSwap marker score→Column marker diagnostics→Swap search
- Total tokens
- 5.7M
- Output
- 40.3K
Codex + DeepSeek-v4-pro-0813
Replicate 3
Matches predictionUDT + standard tools
AnswerNone
WorkflowFilter Tabular→Tp Grep Tool→Datamash Ops→Wheat Marker Swap Score
- Total tokens
- 22.3M
- Output
- 69.3K
Codex GPT-5.6 Luna
3 replicates
Codex GPT-5.6 Luna
Replicate 1
Matches predictionUDT + standard tools
AnswerNone
WorkflowXlsx2Tsv→Wheat pseudobulk swap diagnostic→Wheat UDT preflight→Select columns→Sort rows→3 more tools
- Total tokens
- 22.5M
- Output
- 58.0K
Codex GPT-5.6 Luna
Replicate 2
Matches predictionUDT + standard tools
AnswerNone
WorkflowTp Sort Header Tool→Sort rows→Xlsx2Tsv→Grep→Wheat scRNA-seq two-column swap diagnostic
- Total tokens
- 11.6M
- Output
- 29.2K
Codex GPT-5.6 Luna
Replicate 3
Matches predictionUDT + standard tools
AnswerNone
WorkflowWheat profile diagnostic→Wheat runtime probe→Wheat runtime probe v2→Wheat runtime probe v3→Datamash Transpose→9 more tools
- Total tokens
- 39.4M
- Output
- 80.7K